PDB entry 5yn3

View 5yn3 on RCSB PDB site
Description: Crystal structure of xylose isomerase from Piromyces sp. E2
Class: isomerase
Keywords: Xylose isomerase, ISOMERASE
Deposited on 2017-10-24, released 2018-05-09
The last revision prior to the SCOPe 2.08 freeze date was dated 2020-09-09, with a file datestamp of 2020-09-04.
Experiment type: XRAY
Resolution: 2.7 Å
R-factor: N/A
AEROSPACI score: 0.24 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: xylose isomerase
    Species: Piromyces sp. (strain E2) [TaxId:73868]
    Gene: XYLA
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5yn3a_
  • Chain 'B':
    Compound: xylose isomerase
    Species: Piromyces sp. (strain E2) [TaxId:73868]
    Gene: XYLA
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5yn3b_
  • Chain 'C':
    Compound: xylose isomerase
    Species: Piromyces sp. (strain E2) [TaxId:73868]
    Gene: XYLA
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5yn3c_
  • Chain 'D':
    Compound: xylose isomerase
    Species: Piromyces sp. (strain E2) [TaxId:73868]
    Gene: XYLA
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5yn3d_
  • Heterogens: MN, GOL, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >5yn3A (A:)
mrgshhhhhhgsmakeyfpqiqkikfegkdsknplafhyydaekevmgkkmkdwlrfama
wwhtlcaegadqfgggtksfpwnegtdaieiakqkvdagfeimqklgipyycfhdvdlvs
egnsieeyesnlkavvaylkekqketgikllwstanvfghkrymngastnpdfdvvarai
vqiknaidagielgaenyvfwggregymsllntdqkrekehmatmltmardyarskgfkg
tfliepkpmeptkhqydvdtetaigflkahnldkdfkvnievnhatlaghtfehelacav
dagmlgsidanrgdyqngwdtdqfpidqyelvqawmeiirgggfvtggtnfdaktrrnst
dlediiiahvsgmdamaralenaakllqespytkmkkeryasfdsgigkdfedgkltleq
vyeygkkngepkqtsgkqelyeaivamyq

    Sequence, based on observed residues (ATOM records): (download) 
    >5yn3A (A:)
keyfpqiqkikfegkdsknplafhyydaekevmgkkmkdwlrfamawwhtlcaegadqfg
ggtksfpwnegtdaieiakqkvdagfeimqklgipyycfhdvdlvsegnsieeyesnlka
vvaylkekqketgikllwstanvfghkrymngastnpdfdvvaraivqiknaidagielg
aenyvfwggregymsllntdqkrekehmatmltmardyarskgfkgtfliepkpmeptkh
qydvdtetaigflkahnldkdfkvnievnhatlaghtfehelacavdagmlgsidanrgd
yqngwdtdqfpidqyelvqawmeiirgggfvtggtnfdaktrrnstdlediiiahvsgmd
amaralenaakllqespytkmkkeryasfdsgigkdfedgkltleqvyeygkkngepkqt
sgkqelyeaivamyq

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >5yn3B (B:)
mrgshhhhhhgsmakeyfpqiqkikfegkdsknplafhyydaekevmgkkmkdwlrfama
wwhtlcaegadqfgggtksfpwnegtdaieiakqkvdagfeimqklgipyycfhdvdlvs
egnsieeyesnlkavvaylkekqketgikllwstanvfghkrymngastnpdfdvvarai
vqiknaidagielgaenyvfwggregymsllntdqkrekehmatmltmardyarskgfkg
tfliepkpmeptkhqydvdtetaigflkahnldkdfkvnievnhatlaghtfehelacav
dagmlgsidanrgdyqngwdtdqfpidqyelvqawmeiirgggfvtggtnfdaktrrnst
dlediiiahvsgmdamaralenaakllqespytkmkkeryasfdsgigkdfedgkltleq
vyeygkkngepkqtsgkqelyeaivamyq

    Sequence, based on observed residues (ATOM records): (download) 
    >5yn3B (B:)
keyfpqiqkikfegkdsknplafhyydaekevmgkkmkdwlrfamawwhtlcaegadqfg
ggtksfpwnegtdaieiakqkvdagfeimqklgipyycfhdvdlvsegnsieeyesnlka
vvaylkekqketgikllwstanvfghkrymngastnpdfdvvaraivqiknaidagielg
aenyvfwggregymsllntdqkrekehmatmltmardyarskgfkgtfliepkpmeptkh
qydvdtetaigflkahnldkdfkvnievnhatlaghtfehelacavdagmlgsidanrgd
yqngwdtdqfpidqyelvqawmeiirgggfvtggtnfdaktrrnstdlediiiahvsgmd
amaralenaakllqespytkmkkeryasfdsgigkdfedgkltleqvyeygkkngepkqt
sgkqelyeaivamyq

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >5yn3C (C:)
mrgshhhhhhgsmakeyfpqiqkikfegkdsknplafhyydaekevmgkkmkdwlrfama
wwhtlcaegadqfgggtksfpwnegtdaieiakqkvdagfeimqklgipyycfhdvdlvs
egnsieeyesnlkavvaylkekqketgikllwstanvfghkrymngastnpdfdvvarai
vqiknaidagielgaenyvfwggregymsllntdqkrekehmatmltmardyarskgfkg
tfliepkpmeptkhqydvdtetaigflkahnldkdfkvnievnhatlaghtfehelacav
dagmlgsidanrgdyqngwdtdqfpidqyelvqawmeiirgggfvtggtnfdaktrrnst
dlediiiahvsgmdamaralenaakllqespytkmkkeryasfdsgigkdfedgkltleq
vyeygkkngepkqtsgkqelyeaivamyq

    Sequence, based on observed residues (ATOM records): (download) 
    >5yn3C (C:)
keyfpqiqkikfegkdsknplafhyydaekevmgkkmkdwlrfamawwhtlcaegadqfg
ggtksfpwnegtdaieiakqkvdagfeimqklgipyycfhdvdlvsegnsieeyesnlka
vvaylkekqketgikllwstanvfghkrymngastnpdfdvvaraivqiknaidagielg
aenyvfwggregymsllntdqkrekehmatmltmardyarskgfkgtfliepkpmeptkh
qydvdtetaigflkahnldkdfkvnievnhatlaghtfehelacavdagmlgsidanrgd
yqngwdtdqfpidqyelvqawmeiirgggfvtggtnfdaktrrnstdlediiiahvsgmd
amaralenaakllqespytkmkkeryasfdsgigkdfedgkltleqvyeygkkngepkqt
sgkqelyeaivamyq

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >5yn3D (D:)
mrgshhhhhhgsmakeyfpqiqkikfegkdsknplafhyydaekevmgkkmkdwlrfama
wwhtlcaegadqfgggtksfpwnegtdaieiakqkvdagfeimqklgipyycfhdvdlvs
egnsieeyesnlkavvaylkekqketgikllwstanvfghkrymngastnpdfdvvarai
vqiknaidagielgaenyvfwggregymsllntdqkrekehmatmltmardyarskgfkg
tfliepkpmeptkhqydvdtetaigflkahnldkdfkvnievnhatlaghtfehelacav
dagmlgsidanrgdyqngwdtdqfpidqyelvqawmeiirgggfvtggtnfdaktrrnst
dlediiiahvsgmdamaralenaakllqespytkmkkeryasfdsgigkdfedgkltleq
vyeygkkngepkqtsgkqelyeaivamyq

    Sequence, based on observed residues (ATOM records): (download) 
    >5yn3D (D:)
keyfpqiqkikfegkdsknplafhyydaekevmgkkmkdwlrfamawwhtlcaegadqfg
ggtksfpwnegtdaieiakqkvdagfeimqklgipyycfhdvdlvsegnsieeyesnlka
vvaylkekqketgikllwstanvfghkrymngastnpdfdvvaraivqiknaidagielg
aenyvfwggregymsllntdqkrekehmatmltmardyarskgfkgtfliepkpmeptkh
qydvdtetaigflkahnldkdfkvnievnhatlaghtfehelacavdagmlgsidanrgd
yqngwdtdqfpidqyelvqawmeiirgggfvtggtnfdaktrrnstdlediiiahvsgmd
amaralenaakllqespytkmkkeryasfdsgigkdfedgkltleqvyeygkkngepkqt
sgkqelyeaivamyq